Coexpression cluster:C1134

Full id: C1134_Eosinophils_Neutrophils_CD19_CD8_Natural_CD4_Basophils

Phase1 CAGE Peaks

Hg19::chr11:121323670..121323687,-	p1@ENST00000501964 p1@uc001pxw.1
Hg19::chr11:65407331..65407354,+	p5@SIPA1
Hg19::chr13:25861394..25861408,-	p7@MTMR6
Hg19::chr1:235490214..235490232,+	p7@GGPS1
Hg19::chr22:40440895..40440904,+	p12@TNRC6B
Hg19::chr6:30034656..30034686,-	p@chr6:30034656..30034686 -
Hg19::chr7:43688351..43688370,-	p3@C7orf44

Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

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No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data

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GO ID	GO name	FDR corrected p-value
GO:0004337	geranyltranstransferase activity	0.0141267875544012
GO:0004161	dimethylallyltranstransferase activity	0.0141267875544012
GO:0046582	Rap GTPase activator activity	0.0141267875544012
GO:0004311	farnesyltranstransferase activity	0.0141267875544012
GO:0046839	phospholipid dephosphorylation	0.0493942937796945
GO:0004659	prenyltransferase activity	0.0493942937796945

Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br><br>

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Cell Type

Ontology term	p-value	n
leukocyte	4.59e-72	136
hematopoietic stem cell	6.24e-59	168
angioblastic mesenchymal cell	6.24e-59	168
nongranular leukocyte	1.07e-54	115
hematopoietic cell	3.05e-54	177
hematopoietic lineage restricted progenitor cell	4.44e-52	120
hematopoietic oligopotent progenitor cell	7.93e-52	161
hematopoietic multipotent progenitor cell	7.93e-52	161
lymphocyte	7.69e-44	53
common lymphoid progenitor	7.69e-44	53
lymphoid lineage restricted progenitor cell	4.56e-43	52
nucleate cell	1.28e-41	55
mature alpha-beta T cell	1.65e-23	18
alpha-beta T cell	1.65e-23	18
immature T cell	1.65e-23	18
mature T cell	1.65e-23	18
immature alpha-beta T cell	1.65e-23	18
lymphocyte of B lineage	1.06e-21	24
pro-B cell	1.06e-21	24
myeloid leukocyte	3.11e-20	72
classical monocyte	5.54e-20	42
CD14-positive, CD16-negative classical monocyte	5.54e-20	42
T cell	2.31e-18	25
pro-T cell	2.31e-18	25
defensive cell	3.00e-16	48
phagocyte	3.00e-16	48
B cell	1.76e-15	14
myeloid cell	3.48e-15	108
common myeloid progenitor	3.48e-15	108
CD8-positive, alpha-beta T cell	8.06e-15	11
granulocyte monocyte progenitor cell	3.44e-14	67
macrophage dendritic cell progenitor	1.20e-13	61
mesenchymal cell	3.20e-13	354
myeloid lineage restricted progenitor cell	1.89e-12	66
connective tissue cell	2.00e-12	361
monopoietic cell	3.13e-12	59
monocyte	3.13e-12	59
monoblast	3.13e-12	59
promonocyte	3.13e-12	59
granulocyte	4.76e-12	8
motile cell	1.09e-09	386
CD4-positive, alpha-beta T cell	1.36e-09	6
blood cell	3.76e-08	11
multi fate stem cell	7.39e-07	427

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	2.93e-22	98
blood island	2.93e-22	98
hemolymphoid system	1.03e-20	108
immune system	3.57e-15	93
bone marrow	5.83e-13	76
connective tissue	2.37e-11	371
bone element	3.14e-11	82
skeletal element	2.54e-09	90
skeletal system	2.00e-07	100
blood	2.88e-07	15
haemolymphatic fluid	2.88e-07	15
organism substance	2.88e-07	15

Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

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Novel motifs

JASPAR motifs

Motifs	-log10(p-value)
{{{tfbs_overrepresentation_jaspar}}}

ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data

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(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF	#promoters	Enrichment	p-value	q-value
CHD2#1106	5	7.3885877386549	0.000149868960082067	0.00193165053955461
EBF1#1879	5	6.36176203326358	0.000307843991861182	0.00316913934608083
ELF1#1997	6	3.64979825040646	0.000937747978262069	0.00678895474155776
NFKB1#4790	7	5.48806342419384	6.66568321176054e-06	0.000194566039394371
PAX5#5079	4	3.81118030353019	0.0120826168155519	0.043824978037071
POU2F2#5452	4	5.20349946156716	0.00386671431017981	0.019061445097747
TBP#6908	6	3.17723201751119	0.00207411205185266	0.0120156527947326
ZEB1#6935	4	9.65053258145363	0.000371891664568925	0.00369834255912341

Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data

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This analysis result is provided for C0 - C305 clusters.